Extended Data Fig. 8: Transcription factors enriched at promoters and enhancers and hybrid-selection STARR-seq in K562 cells.
From: Compatibility rules of human enhancer and promoter sequences
a. ChIP-seq signal for 5 transcription factors in K562 cells at P1 and P2 promoters in the genome, aligned by boundaries of the 264-bp ExP STARR-seq promoter sequence (see Methods). Top: average ChIP-seq signal normalized to input. Bottom: signal at individual genomic promoters. Black line: average for random genomic control sequences. b. ChIP-seq signal at E1 and E2 enhancers in the genome. Black line: average for random genomic control sequences. c. Correlation between intrinsic promoter activity and responsiveness of promoters to E1 enhancers (average activation by E1 sequences, expressions vs. random genomic controls). Each point is one promoter. Same as Fig. 5b, but in normal scale instead of log2 scale. d. Correlation of HS-STARR-seq expression between biological replicate experiments for promoter and accessible element pools, calculated for individual elements with unique plasmid barcodes. Axes represent the average STARR-seq expression (RNA/DNA, log10 scale) of two biological replicates. Density: number of plasmids. e. Fragment length distribution in HS-STARR-seq in promoter and accessible element pools, of fragments with at least 25 DNA counts. f. STARR-seq expression (y-axis) and fragment length (x-axis) relationship in HS-STARR-seq. Density: number of plasmids.
